Sequence
atgc intronic sequence ATGC exonic sequence...gaattaattaaatgggcattgatgattgacgtggtttgagaaaaaaaatccagaacaaagtttgtattttaactttttactattgttgacattactacagACAATGCCAGAAGCAGCAGGAGCTGTTGCAGCTGCAGCTGTAGCTGATCGTTTGCATGGGTCAAAGGAGGACCGGAAGCTGGCCATTGTTTTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G021846_T02 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os05g07130.1 (Oryza sativa), 3'ss of exon 5
gaattaattaaatgggcattgatgattgacgtggtttgagaaaaaaaatcc----agaacaaagtttgtattttaactttttactattgttgacattactacagACAATGCCAGAAGCAGCAGGAGCTGTTGCAGCTGCAGCTGTAGCTGATCGTTTGCATGGGTCAAAGGAGGACCGGAAGCTGGCCATTGTTTTG
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-tatggtccatctatccattcatcaattttctattgttaaaagaaattttccatcggaattaagtttgtacttgattctttcttcttaattgatgtattagCAGGCCATGCCAGAAGCAGCAGGAGCTGTTGCAGCTGCAGCTGTAGCTGACCGATTGCATGGGTCAAAGGAGGACCGAAAACTAGCTATTGTTTTG
upper sequence: GRMZM2G021846_T02 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os05g07130.2 (Oryza sativa), 3'ss of exon 5
gaattaattaaatgggcattgatgattgacgtggtttgagaaaaaaaatc--cagaacaaagtttgtattttaactttttactattgttgacattactacagACAATGCCAGAAGCAGCAGGAGCTGTTGCAGCTGCAGCTGTAGCTGATCGTTTGCATGGGTCAAAGGAGGACCGGAAGCTGGCCATTGTTTTG
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ggtccatctatccattcatcaat--tttctattgttaaaagaaattttccatcggaattaagtttgtacttgattctttcttcttaattgatgtattagcagGCCATGCCAGAAGCAGCAGGAGCTGTTGCAGCTGCAGCTGTAGCTGACCGATTGCATGGGTCAAAGGAGGACCGAAAACTAGCTATTGTTTTG
upper sequence: GRMZM2G021846_T02 (Zea mays), 3'ss of exon 5
lower sequence: Vv06s0004g06920.t01 (Vitis vinifera), 3'ss of exon 5
------------------gaattaattaaatgggcattgatgattgacgtggtttgagaaaaaaaatccagaacaaagtttgtatttta-actttttactattgttgaca-ttactacag-
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gtttgtacaaagtgcaaaggcatacttgttctgtcagtgaagatc-atgaagtcataattatttgccttgtttctaggtgttcttttgatacctgtgactctttctgttaattgttagAATGCAATGCCAGCAGCTGCTGGAGCTGTTGCAGCTGCTGCTGTAGCTGATCAGATGCTTGGTCCGAAAGAGGATAGACATTTGGCAATTGTCCTG
upper sequence: GRMZM2G021846_T02 (Zea mays), 3'ss of exon 5
lower sequence: PP1S414_24V6.1 (Physcomitrella patens), 3'ss of exon 5
gaattaattaaatgggcat-tgatgattgacgtggtttgagaaaaaaaatccagaacaaagtttgtattttaactttttactattgttgac-attac---tacagACAATGCCAGAAGCAGCAGGAGCTGTTGCAGCTGCAGCTGTAGCTGATCGTTTGCATGGGTCAAAGGAGGACCGGAAGCTGGCCATTGTTTTG
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-gattgttcatattcacatgctgtgataaat---ctttaacatagtgactattgtacat-gcatccattggactggatgatgatggtaaaagatgacgtgtgcagACAATGCCTGAAGCTGCCGGTGCTGTTGCCGCTGCAGCTGTTGCTGATCGTCTG-ATGG--CGAAAGAACGTCGTCAATTAGCAATCATTCTGMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|32926116|gb|CF030928.1|CF030928EST: CAGCCAGTGCATGCTCCTTGGCATCTGGGTTTAGTTTTGGATCAGCAAAG ACAATGCCAGAAGCAGCAGGAGCTGTTGCAGCTGCAGCTGTAGCTGATCGT
genomic: CAGCCAGTGCATGCTCCTTGGCATCTGGGTTTAGTTTTGGATCAGCAAAGgtcagcattg ... attactacagACAATGCCAGAAGCAGCAGGAGCTGTTGCAGCTGCAGCTGTAGCTGATCGT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaatccagaacaaagtttgtattttaactttttactattgttgacattactacagACAATGCCAGAAGCAGCAGGAGCTGTTGCAGCTGCAGCTGTAGCTGATCGTTTGCATGGGTCAAAGGAGGACCGGAAGCTGGCCATTGTTTTG
aaagtttgtattttaa TA-rich tract
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gaattaattaaatgggcattgatgattgacgtggtttgagaaaaaaaatccagaacaaagtttgtattttaactttttactattgttgacattactacagACAATGCCAGAAGCAGCAGGAGCTGTTGCAGCTGCAGCTGTAGCTGATCGTTTGCATGGGTCAAAGGAGGACCGGAAGCTGGCCATTGTTTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG